Bioconductor Baseline

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deseq2 baseline LRT

updated 4.6 years ago by Michael Love 40k • written 4.6 years ago by Assa Yeroslaviz ★ 1.5k

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edger rnaseq baseline linear model negative binomial model

updated 7.3 years ago by Gordon Smyth 48k • written 7.5 years ago by gatk • 0

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Comment: DMRcate design by James W. MacDonald 63k

That's what identical context means.

Comment: DMRcate design by Jitendra ▴ 10

Thanks James, but I did not understand it clearly. Could I used same Limma design matrix for DMRcate?

Comment: Steps needed to change design (relevel factors) in DESeq2 by jd774 • 0

Thanks for the example code, would the `"condition_1_vs_2"` and `"condition_2_vs_1"` giving same or different results on DEGs and normalize…

Answer: heatmap.2 - change column & row locations; angle / rotate by nehagoyal6397 • 0

Window 10 are comes with the new updates [how to fix connections to wireless displays in windows 10](http://fixwindows10connections.com) ju…

Comment: filtering out lowly expressed genes by groups by James W. MacDonald 63k

You might want to filter first though. ``` fun <- function(deseqobj, contvec, cutoff) { lildds <- dds[rowMeans(assays(deseqobj…

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Comment: Timely differentially expressed genes

Comment: NPARC package y-variable

Comment: List of Deprecated Packages for Bioc3.18

Answer: Manual creation of qPCRset does not work

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